Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HCH_RS23715 Genome accession   NC_007645
Coordinates   5422905..5423783 (+) Length   292 a.a.
NCBI ID   WP_011399018.1    Uniprot ID   Q2SBM0
Organism   Hahella chejuensis KCTC 2396     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5417905..5428783
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HCH_RS33255 (HCH_05276) - 5418604..5419050 (-) 447 WP_011399014.1 pilin -
  HCH_RS23700 (HCH_05277) - 5419112..5419585 (-) 474 WP_011399015.1 pilin -
  HCH_RS23705 (HCH_05278) pilB 5419902..5421614 (+) 1713 WP_011399016.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HCH_RS23710 (HCH_05279) pilC 5421618..5422838 (+) 1221 WP_011399017.1 type II secretion system F family protein Machinery gene
  HCH_RS23715 (HCH_05280) pilD 5422905..5423783 (+) 879 WP_011399018.1 prepilin peptidase Machinery gene
  HCH_RS23720 (HCH_05281) coaE 5423803..5424429 (+) 627 WP_011399019.1 dephospho-CoA kinase -
  HCH_RS23725 (HCH_05282) yacG 5424419..5424655 (+) 237 WP_011399020.1 DNA gyrase inhibitor YacG -
  HCH_RS23730 (HCH_05283) - 5424706..5425746 (+) 1041 WP_011399021.1 hypothetical protein -
  HCH_RS23735 (HCH_05285) tsaA 5425756..5426475 (+) 720 WP_011399022.1 tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO -
  HCH_RS35120 (HCH_05284) - 5426465..5427019 (-) 555 WP_083769817.1 PilZ domain-containing protein -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 31894.26 Da        Isoelectric Point: 7.1063

>NTDB_id=25206 HCH_RS23715 WP_011399018.1 5422905..5423783(+) (pilD) [Hahella chejuensis KCTC 2396]
MLDIFNQFNHNPALLYITVVVFGLIVGSFLNVVILRKPKMLEQEWRAQCAEIPGCDCPKTDEPLITLSKPDSTCPKCGHK
IRAWENIPVISYLFLGGKCSSCKTGISIRYPLVEIATALLAVIVVCYFKMSWAGLAAIGLSWTLLTLSLIDFDTQLLPDD
LTLPLLWAGLLINIQGIFAPLSEAVIGAVVGYLALWSVYHLFRLLTGKEGMGFGDFKLLAALGAWLGWKMLPLIILLSSL
VGAVIGIAMIIILGRDKNIPIPFGPYLAIAGWIAMIWGNDIVSAYLGMYPAP

Nucleotide


Download         Length: 879 bp        

>NTDB_id=25206 HCH_RS23715 WP_011399018.1 5422905..5423783(+) (pilD) [Hahella chejuensis KCTC 2396]
ATGTTAGATATCTTTAATCAGTTCAATCACAATCCTGCGCTGCTTTATATAACGGTCGTTGTTTTCGGCTTGATTGTCGG
CAGTTTTTTGAATGTCGTTATTCTGCGGAAGCCAAAAATGCTGGAGCAGGAGTGGCGCGCTCAATGCGCCGAAATTCCAG
GCTGCGACTGCCCCAAAACAGACGAGCCCCTGATAACGCTTTCTAAACCCGATTCAACCTGCCCAAAGTGCGGACATAAA
ATCAGGGCTTGGGAAAATATTCCGGTAATCAGTTATTTGTTTCTTGGCGGCAAGTGCTCCTCGTGCAAAACAGGCATTTC
CATACGCTATCCTCTAGTGGAAATCGCCACCGCTTTATTAGCGGTCATTGTCGTCTGCTATTTCAAGATGAGTTGGGCGG
GACTGGCGGCCATTGGCTTAAGCTGGACATTGCTTACTTTGTCATTAATAGACTTCGACACTCAGTTACTGCCTGATGAC
CTGACGTTACCTTTACTTTGGGCGGGATTACTAATCAATATCCAGGGTATTTTCGCCCCCCTATCAGAAGCTGTGATTGG
CGCAGTAGTCGGCTACTTGGCTTTGTGGTCGGTCTACCACTTATTCCGCCTTTTGACTGGCAAGGAAGGCATGGGCTTTG
GCGATTTCAAGCTGCTCGCCGCTCTGGGCGCCTGGTTGGGGTGGAAAATGCTGCCCCTTATTATTCTGCTTTCCTCACTG
GTTGGAGCCGTTATTGGGATAGCAATGATCATTATCCTGGGTAGAGATAAGAATATCCCTATCCCCTTTGGTCCTTATCT
GGCCATCGCAGGCTGGATAGCTATGATCTGGGGAAATGATATCGTATCCGCCTATTTGGGAATGTACCCTGCGCCTTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(140-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-127)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q2SBM0

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilD Acinetobacter baumannii D1279779

52.265

98.288

0.514
  pilD Acinetobacter nosocomialis M2

51.916

98.288

0.51
  pilD Vibrio cholerae strain A1552

52.669

96.233

0.507
  pilD Vibrio campbellii strain DS40M4

51.773

96.575

0.5
  pilD Neisseria gonorrhoeae MS11

51.894

90.411

0.469

Multiple sequence alignment